@article {49087,
	title = {cisTEM, User-friendly software for single-particle image processing.},
	journal = {eLife},
	volume = {7},
	year = {2018},
	month = {2018 Mar 07},
	abstract = {<p>We have developed new open-source software calledTEM (computational imaging system for transmission electron microscopy) for the processing of data for high-resolution electron cryo-microscopy and single-particle averaging.TEM features a graphical user interface that is used to submit jobs, monitor their progress, and display results. It implements a full processing pipeline including movie processing, image defocus determination, automatic particle picking, 2D classification, ab-initio 3D map generation from random parameters, 3D classification, and high-resolution refinement and reconstruction. Some of these steps implement newly-developed algorithms; others were adapted from previously published algorithms. The software is optimized to enable processing of typical datasets (2000 micrographs, 200k - 300k particles) on a high-end, CPU-based workstation in half a day or less, comparable to GPU-accelerated processing. Jobs can also be scheduled on large computer clusters using flexible run profiles that can be adapted for most computing environments.TEM is available for download from cistem.org.</p>
},
	issn = {2050-084X},
	doi = {10.7554/eLife.35383},
	author = {Grant, Timothy and Rohou, Alexis and Grigorieff, Nikolaus}
}
